No Arabic abstract
We have entered an era of a pandemic that has shaken the world with major impact to medical systems, economics and agriculture. Prominent computational and mathematical models have been unreliable due to the complexity of the spread of infections. Moreover, lack of data collection and reporting makes any such modelling attempts unreliable. Hence we need to re-look at the situation with the latest data sources and most comprehensive forecasting models. Deep learning models such as recurrent neural networks are well suited for modelling temporal sequences. In this paper, prominent recurrent neural networks, in particular textit{long short term memory} (LSTMs) networks, bidirectional LSTM, and encoder-decoder LSTM models for multi-step (short-term) forecasting the spread of COVID-infections among selected states in India. We select states with COVID-19 hotpots in terms of the rate of infections and compare with states where infections have been contained or reached their peak and provide two months ahead forecast that shows that cases will slowly decline. Our results show that long-term forecasts are promising which motivates the application of the method in other countries or areas. We note that although we made some progress in forecasting, the challenges in modelling remain due to data and difficulty in capturing factors such as population density, travel logistics, and social aspects such culture and lifestyle.
The COVID-19 pandemic represents the most significant public health disaster since the 1918 influenza pandemic. During pandemics such as COVID-19, timely and reliable spatio-temporal forecasting of epidemic dynamics is crucial. Deep learning-based time series models for forecasting have recently gained popularity and have been successfully used for epidemic forecasting. Here we focus on the design and analysis of deep learning-based models for COVID-19 forecasting. We implement multiple recurrent neural network-based deep learning models and combine them using the stacking ensemble technique. In order to incorporate the effects of multiple factors in COVID-19 spread, we consider multiple sources such as COVID-19 confirmed and death case count data and testing data for better predictions. To overcome the sparsity of training data and to address the dynamic correlation of the disease, we propose clustering-based training for high-resolution forecasting. The methods help us to identify the similar trends of certain groups of regions due to various spatio-temporal effects. We examine the proposed method for forecasting weekly COVID-19 new confirmed cases at county-, state-, and country-level. A comprehensive comparison between different time series models in COVID-19 context is conducted and analyzed. The results show that simple deep learning models can achieve comparable or better performance when compared with more complicated models. We are currently integrating our methods as a part of our weekly forecasts that we provide state and federal authorities.
We introduce DeepGLEAM, a hybrid model for COVID-19 forecasting. DeepGLEAM combines a mechanistic stochastic simulation model GLEAM with deep learning. It uses deep learning to learn the correction terms from GLEAM, which leads to improved performance. We further integrate various uncertainty quantification methods to generate confidence intervals. We demonstrate DeepGLEAM on real-world COVID-19 mortality forecasting tasks.
Air pollution has a wide range of implications on agriculture, economy, road accidents, and health. In this paper, we use novel deep learning methods for short-term (multi-step-ahead) air-quality prediction in selected parts of Delhi, India. Our deep learning methods comprise of long short-term memory (LSTM) network models which also include some rece
The COVID-19 pandemic has profound global consequences on health, economic, social, political, and almost every major aspect of human life. Therefore, it is of great importance to model COVID-19 and other pandemics in terms of the broader social contexts in which they take place. We present the architecture of AICov, which provides an integrative deep learning framework for COVID-19 forecasting with population covariates, some of which may serve as putative risk factors. We have integrated multiple different strategies into AICov, including the ability to use deep learning strategies based on LSTM and even modeling. To demonstrate our approach, we have conducted a pilot that integrates population covariates from multiple sources. Thus, AICov not only includes data on COVID-19 cases and deaths but, more importantly, the populations socioeconomic, health and behavioral risk factors at a local level. The compiled data are fed into AICov, and thus we obtain improved prediction by integration of the data to our model as compared to one that only uses case and death data.
Design of new drug compounds with target properties is a key area of research in generative modeling. We present a small drug molecule design pipeline based on graph-generative models and a comparison study of two state-of-the-art graph generative models for designing COVID-19 targeted drug candidates: 1) a variational autoencoder-based approach (VAE) that uses prior knowledge of molecules that have been shown to be effective for earlier coronavirus treatments and 2) a deep Q-learning method (DQN) that generates optimized molecules without any proximity constraints. We evaluate the novelty of the automated molecule generation approaches by validating the candidate molecules with drug-protein binding affinity models. The VAE method produced two novel molecules with similar structures to the antiretroviral protease inhibitor Indinavir that show potential binding affinity for the SARS-CoV-2 protein target 3-chymotrypsin-like protease (3CL-protease).